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Using NCBI site - How to get the detailed description of any sequence (Jan/27/2006 )

Hi all,

I am not familiar how to use NCBI site and how to intrepret the information for any sequence? Is there a tutorial site which I can use to get detailed information of what means what on the any gene sequence. Like for example in the below sequence why are the bases arranged in pairs of 10 bps each and what the number in front of each row represent? I will appreciate if any one can help me get started.

Thanks

Peggi


1 gatcctccat atacaacggt atctccacct caggtttaga tctcaacaac ggaaccattg
61 ccgacatgag acagttaggt atcgtcgaga gttacaagct aaaacgagca gtagtcagct
121 ctgcatctga agccgctgaa gttctactaa gggtggataa catcatccgt gcaagaccaa
181 gaaccgccaa tagacaacat atgtaacata tttaggatat acctcgaaaa taataaaccg

-peggi-

The numbers refer to the position of that residue in the sequence.
So the first nucleotide is 1.
Then on the next line the first nucleotide is 61.
This means that the number of nucleotides on that line is.....


I often find it quicker to put something into google, like ncbi user manual, as the response is far wuicker than a forum.
http://www.ncbi.nlm.nih.gov/books/bv.fcgi?...med.TOC&depth=2

It has been a long time since doing anything with DNA but I think (and this may well be wrong) but 10 is a simple number that makes the sequence easy to read as well as easy to parse using variouse computer ;anguages. I don't think there is any, more significant reason.

The best place to start is:
http://www.ncbi.nlm.nih.gov/About/sitemap.html

-DPK-

Hi,

here is a link to a page containing a lot of informations:
http://www.infobiogen.fr/doc/documents.php?cours=doc&lg=en

you will learn in particulary on all the formats used for nucleic sequences...


S├ębastien_

-tryptofan-

Hi,

Thanks for the information. I was searching for such sites but was not getting the correct link I guess...

Thanks again

Cheers

Peggi

-peggi-

QUOTE (peggi @ Jan 27 2006, 02:09 AM)
Hi all,

I am not familiar how to use NCBI site and how to intrepret the information for any sequence? Is there a tutorial site which I can use to get detailed information of what means what on the any gene sequence. Like for example in the below sequence why are the bases arranged in pairs of 10 bps each and what the number in front of each row represent? I will appreciate if any one can help me get started.

Thanks

Peggi


1 gatcctccat atacaacggt atctccacct caggtttaga tctcaacaac ggaaccattg
61 ccgacatgag acagttaggt atcgtcgaga gttacaagct aaaacgagca gtagtcagct
121 ctgcatctga agccgctgaa gttctactaa gggtggataa catcatccgt gcaagaccaa
181 gaaccgccaa tagacaacat atgtaacata tttaggatat acctcgaaaa taataaaccg


you can use NCBI Blast tool .using blastn to find the similar known gene sequence.so you can get some information.
the numbers like 61,donot allow to blastn,blank is ok.

-nacoo-